Evidence map›Paper›PMID 25479443›Full record

ArticlePloS one2014

Crystal structure of Escherichia coli-expressed Haloarcula marismortui bacteriorhodopsin I in the trimeric form.

Vitaly Shevchenko, Ivan Gushchin, Vitaly Polovinkin, Ekaterina Round, Valentin Borshchevskiy, Petr Utrobin, Alexander Popov, Taras Balandin, Georg Büldt, Valentin Gordeliy

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
0.7field-weighted citation impact, top 35% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed, 17 citations in OpenAlex.

  1. Article
  2. Article
  3. E. coli Expression and Purification of Microbial and Viral Rhodopsins.Methods in molecular biology (Clifton, N.J.) · 2022
    Article
  4. Crystallization of Microbial Rhodopsins.Methods in molecular biology (Clifton, N.J.) · 2022
    Article
  5. Article
  6. Article
  7. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors at 6 institutions in 3 countries.

Vitaly ShevchenkoInstitute of Complex Systems (ICS-6) Structural Biochemistry, Research Centre Jülich GmbH, Jülich, Germany; Laboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia.
Ivan GushchinLaboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia; Univ. Grenoble Alpes, IBS, Grenoble, France; CNRS, IBS, Grenoble, France; CEA, IBS, Grenoble, France.
Vitaly PolovinkinLaboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia; Univ. Grenoble Alpes, IBS, Grenoble, France; CNRS, IBS, Grenoble, France; CEA, IBS, Grenoble, France.
Ekaterina RoundInstitute of Complex Systems (ICS-6) Structural Biochemistry, Research Centre Jülich GmbH, Jülich, Germany.
Valentin BorshchevskiyInstitute of Complex Systems (ICS-6) Structural Biochemistry, Research Centre Jülich GmbH, Jülich, Germany; Laboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia.
Petr UtrobinLaboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia; Univ. Grenoble Alpes, IBS, Grenoble, France; CNRS, IBS, Grenoble, France.
Alexander PopovEuropean Synchrotron Radiation Facility, Grenoble, France.
Taras BalandinInstitute of Complex Systems (ICS-6) Structural Biochemistry, Research Centre Jülich GmbH, Jülich, Germany.
Georg BüldtLaboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia.
Valentin GordeliyInstitute of Complex Systems (ICS-6) Structural Biochemistry, Research Centre Jülich GmbH, Jülich, Germany; Laboratory for advanced studies of membrane proteins, Moscow institute of physics and technology, Dolgoprudniy, Russia; Univ. Grenoble Alpes, IBS, Grenoble, France; CNRS, IBS, Grenoble, France; CEA, IBS, Grenoble, France; European Synchrotron Radiation Facility, Grenoble, France.
Forschungszentrum Jülich · DEInstitut de Biologie Structurale · FRMoscow Institute of Physics and Technology · RUCentre National de la Recherche Scientifique · FREuropean Synchrotron Radiation Facility · FRUniversité Grenoble Alpes · FR

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Bacteriorhodopsins are a large family of seven-helical transmembrane proteins that function as light-driven proton pumps. Here, we present the crystal structure of a new member of the family, Haloarcula marismortui bacteriorhodopsin I (HmBRI) D94N mutant, at the resolution of 2.5 Å. While the HmBRI retinal-binding pocket and proton donor site are similar to those of other archaeal proton pumps, its proton release region is extended and contains additional water molecules. The protein's fold is reinforced by three novel inter-helical hydrogen bonds, two of which result from double substitutions relative to Halobacterium salinarum bacteriorhodopsin and other similar proteins. Despite the expression in Escherichia coli and consequent absence of native lipids, the protein assembles as a trimer in crystals. The unique extended loop between the helices D and E of HmBRI makes contacts with the adjacent protomer and appears to stabilize the interface. Many lipidic hydrophobic tail groups are discernible in the membrane region, and their positions are similar to those of archaeal isoprenoid lipids in the crystals of other proton pumps, isolated from native or native-like sources. All these features might explain the HmBRI properties and establish the protein as a novel model for the microbial rhodopsin proton pumping studies.

Indexed as

Crystallography, X-RayBacteriorhodopsinsEscherichia coliHaloarcula marismortuiHydrogen BondingHydrophobic and Hydrophilic InteractionsProtein MultimerizationProtein Structure, SecondaryWaterBacteriorhodopsinsWater

Identifiers

PMID25479443
PMCPMC4257550
OpenAlexW2124492860

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.